L1MC4_3end
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000010 |
|---|---|
| TE superfamily | L1 |
| TE class | LINE |
| Species | Eutheria |
| Length | 2789 |
| Kimura value | 25.26 |
| Tau index | 0.7597 |
| Description | 3' end of L1 retrotransposon, L1MC4_3end subfamily |
| Comment | - |
| Sequence |
CTTGTATCCAGAATATATAAAGAACTCTTAAAACTCAACAATAAAAAAACAAACAACCCAATTAAAAAATGGGCAAAAGATTTGAACAGACATTTCACCAAAGAAGATATACAGATGGCAAATAAGCACATGAAAAGATGCTCAACATCATTNGTCATTAGGGAAATGCAAATTAAAACCACAATGAGATACCACTACACACCTATTAGAATGGCTAAAATCAAAAANACTGACAATACCAAATGCTGGCGAGGATGTGGAGCAACNGGAACTCTCATACATTGCTGGTGGGAATGCAAAATGGTACAGCCACTTTGGAAAACAGTTTGGCAGTTTCTTANAAAGCTAAACATACANTTACCATATGACCCAGCAATCNCACTCCTAGGTATTTACCCAAGNGAANTGAAAACNTATGTCCACACAAAAACCTGTACACGAATGTTTATAGCAGCTTTATTCATAATNGCCAAAANCTGGAAACAACCNAGATGTCCTTCAACAGGTGAATGGATAAACAAACTGTGGTACATCCATACAATGGAATACTACTCAGCGATAAAAAGGAATGAACTACTGATNCACGCAANAACATGGATGAATCTTAAATGCATNTTGCTAAGTGAAAGAAGCCAGNCNNAAAAGGCTACATACTGTATGATTCCATTTATATGACATTCTGGAAAAGGCAAAACTATAGAGACGGAAAACAGATCAGTGGTTGCCAGGGGTTGGGAGATGGGAAGNGGGGATGACTGCAAAGGNGAAGCACAGGGGATTTTTTAGGGTGATGAAACTATTCTGTATNAANTNNTCTGTATGATACTGTGGTGGTGGATACACGACNCTATGCATTTGTCAAAACCCATAGAACTTGTNANNANCCACAGANNTNTACAGCACAAAGAGTGAACTTTAATGTATGCAAATTTTAAAAAATCANTTAGGAGGTCGGGGGATCCCAGGATGGAATGCAGACTGTGACAAANGAATCTAACTGTATTACAAATGNATGANACAACCNCACTGAAGGGGATGGGGGAAAAAGGNGCTGACCTAAGTAACTTTGGAAATGAGTGGANNCTGTAAGGCTAAAGACAAAAAGAACTGTAAACAAACATTGAACTCTAGTTAGTAGGTTTGTTTTTCGCAGNGGTATGGGTTAGCAATTCTGAAACTACTTTCTGTACATNTTATACATTCTAGGATTGAGCAAATAAGTAAATATATTGNGGATAATGGGAGCCAGGTTTCTCACTGTCGGAGAAGGGAGTTACAAATATGGAAAGGGGGAAGGCTAGAATGAACCCTGTGGTGTTGGATTGGAATTGGAGGTATCGGTATGAACTCATGGTTTTTAATATATATGNATATACAGACGGACAGATATAGAAATAGATATAGATATATATGTGTNTGTGTATATGTGTATGTATATACGTACATATATTTCCTAGCTCTGTCCGCTGAGAGGGCCTAGAAGCAATGACACCCCAGTAGCAATGAGCACACCTAGCGCCCAGATCTTGGTTTCTAAATACCATTCTCCACTAAAAGGAACCAGGGCTCCTTGGAGAAATGGCTGATTCCAGGGCTGGGGCAGGGAAAGTACAAGATGAGCCTGGAACATCTTGTTGTGCCAGAAAGTAAGGAAGTGCTCAAAGAATGATGGGGACATGTCAAAAGGACACAGGAGCCAGCTTGAAGGGGCTCCCACTGGCCAAATCTGGGACAATTTGAGCATCAAAATAAATAATGATAGTAATGGATTATAACCCATTGAATAAAATAAGAATCCATGAGTCCATACTGATATAAATAAATAAATAAATAAATGGGGGAGAAGGGAAAGCTCTTCCTTACAGTAGAATGCCAACTAATAAATGTAGAAGGAATGATGGAATTAGAAAAATCACCATTTGGCAACCATCATAGTAATAATTGATTCAGGCAAGAATCATCAATGGATGCTAAAACTAGTGGGTGAAAGTTTGATGAGGAACAGGATATTTACATAGTCTCAAAGTATCTCCCCACAAANTACTTATTAATTACAAAGGGGAAAATAGTAACTTTACAGTGGAGAAACCTGGCAGACACCACCTTAACCAAGTGATCAAAGTTAACATCACCAGTAATGGGACAAATCGACATCATGTGCCTCCTGATATGATGCACTGAGAAGGACACAGCATCACTTCTGTGGTATTCCTGCCAAAAATGCATAACCTGAATCTAATCATGAGGAAACATCAGACAAACCCAAATTGAGGGACATTCTACAAAATAACTGGCCTGTACTCTTCAAAAATGTCAANGTCATGAAAGACAAAGAAAGACTGAGGAACTGTTCCAGATTAAAGGAGACTAAAGAGACATGACAACTAAATGCAACGCGTGATCCTGGATTGGATCCTGGACCAGANNNNNNNTTTGCTATAAAGGACATTATTGGGACAATTGGCGAAATTTGAATANGGTCTGTAGATTAGATAATAGTATTGTATCAATGTTAATTTCCTGATTTTGATAATTGTACTGTGGTTATGTAAGAGAATGTCCTTGTTCTTAGGAAATACACACTGAAGTATTTAGGGGTAAAGGGGCATNATGTCTGCAACTTACTCTCAAATGGTTCAGAAAAAAAAATATGTATATGCANANAGAGAATGATAAAGCAAATGTGGCAAAATGTTAACANTTGGNGAATCTGGGTGAAGGGTATACGGGAGTTCTTTGTACTATTCTTGCAACTTTTCTGTAAGTTTGAAATTATTTCAAAATAAAAA
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TF motifs of the concenus sequence
Use FIMO to detect transcription factor motifs in the concenus sequence of the TE family.
| TE_family | TFBS | Start | End | Strand | Score | Matched sequence |
|---|---|---|---|---|---|---|
| L1MC4_3end | BPC5 | 1377 | 1406 | + | -23.23 | AGACGGACAGATATAGAAATAGATATAGAT |
| L1MC4_3end | BPC5 | 1383 | 1412 | + | -34.93 | ACAGATATAGAAATAGATATAGATATATAT |
| L1MC4_3end | BPC5 | 2323 | 2352 | + | -35.57 | TGAAAGACAAAGAAAGACTGAGGAACTGTT |
| L1MC4_3end | BPC5 | 1381 | 1410 | + | -35.73 | GGACAGATATAGAAATAGATATAGATATAT |
| L1MC4_3end | BPC5 | 1371 | 1400 | + | -39.60 | ATATACAGACGGACAGATATAGAAATAGAT |
| L1MC4_3end | BPC5 | 1375 | 1404 | + | -40.59 | ACAGACGGACAGATATAGAAATAGATATAG |
| L1MC4_3end | BPC5 | 2327 | 2356 | + | -46.05 | AGACAAAGAAAGACTGAGGAACTGTTCCAG |
| L1MC4_3end | BPC5 | 2321 | 2350 | + | -47.98 | CATGAAAGACAAAGAAAGACTGAGGAACTG |
| L1MC4_3end | BPC5 | 1278 | 1307 | + | -48.13 | AAATATGGAAAGGGGGAAGGCTAGAATGAA |
| L1MC4_3end | BPC5 | 1270 | 1299 | + | -49.10 | GGAGTTACAAATATGGAAAGGGGGAAGGCT |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
